# List of top-scoring protein chains for t2k-100-30-near-backbone-11-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 2bitX 165 6.83e-30 2cpl 165 7.12e-30 2cpl b.62.1.1 27420 1yndA 165 8.94e-30 1cwoA 165 9.85e-30 2cpl b.62.1.1 27445 1dywA 173 1.14e-29 2cpl b.62.1.1 27505 1awsA 164 1.18e-29 2cpl b.62.1.1 27431 1qoiA 177 1.31e-29 2cpl b.62.1.1 27490 1ihgA 370 1.47e-29 2cpl a.118.8.1,b.62.1.1 62380,62381 2rmcA 182 1.62e-29 2cpl b.62.1.1 27491 1awqA 164 1.74e-29 2cpl b.62.1.1 27461 1zcxA 178 3.48e-29 1a58 177 3.78e-29 2cpl b.62.1.1 27495 1xo7A 166 4.27e-29 2cfeA 162 7.83e-29 1vdnA 162 9.99e-29 1h0pA 182 1.31e-28 b.62.1.1 76450 2a2nA 176 2.87e-27 1zkcA 197 7.51e-27 1xwnA 174 8.09e-27 2fu0A 160 4.01e-26 2b71A 196 1.64e-25 1lopA 164 2.09e-23 2cpl b.62.1.1 27510 1v9tA 166 2.84e-23 b.62.1.1 108451 1j2aA 166 3.15e-23 b.62.1.1 90779 1clh 166 3.72e-23 2cpl b.62.1.1 27512 1mxiA 160 4.13e-01 c.116.1.1 79646 1zx8A 136 8.40e-01 1icpA 376 2.12e+00 1oyc c.1.4.1 62270 1fj2A 232 2.52e+00 1auoA c.69.1.14 34720 1kq4A 232 3.18e+00 d.207.1.1 68791 1dgnA 89 5.11e+00 1dgnA a.77.1.3 18436 1o26A 232 5.32e+00 d.207.1.1 86566 2gk3A 256 7.08e+00 1vyrA 364 1.11e+01 c.1.4.1 108906 1vypX 364 1.25e+01 c.1.4.1 108905 1h61A 364 1.29e+01 1oyc c.1.4.1 60657 1gvoA 364 1.29e+01 c.1.4.1 76357 2abbA 364 1.34e+01 1sb8A 352 1.47e+01 c.2.1.2 105410 2gcuA 245 1.49e+01 1uocA 289 1.49e+01 c.55.3.9 99686 1yoxA 250 1.54e+01 1c8zA 265 1.86e+01 1c8zA d.23.1.1 38375 1dim 381 1.96e+01 3sil b.68.1.1 27544 1s31A 273 2.06e+01 2sil 381 2.09e+01 3sil b.68.1.1 27543 1b77A 228 2.32e+01 1b77A d.131.1.2,d.131.1.2 41362,41363 1z2lA 423 2.33e+01 2gfhA 260 2.40e+01 1qmpA 130 2.50e+01 1dz3A c.23.1.1 31106 2bdrA 175 2.52e+01 1q45A 391 2.64e+01 c.1.4.1 95780 1rx0A 393 2.65e+01 a.29.3.1,e.6.1.1 98007,98008 1tmy 120 2.67e+01 1dbwA c.23.1.1 31083 1zirA 173 2.70e+01 1vqvA 306 2.80e+01 1a5dA 173 2.99e+01 1amm b.11.1.1,b.11.1.1 23614,23615 1wn0A 145 2.99e+01 2c1iA 431 3.02e+01 1m8uA 173 3.06e+01 b.11.1.1,b.11.1.1 91233,91234 2b4wA 315 3.07e+01 1pswA 348 3.15e+01 c.87.1.7 88287 1xdtR 79 3.16e+01 1xdtR g.3.11.1 44296 2fug5 207 3.24e+01 1xm0A 147 3.27e+01 1m3iA 471 3.42e+01 f.9.1.1 91178 1c0eA 157 3.42e+01 1dg9A c.44.1.1 32638 1dz3A 130 3.48e+01 1dz3A c.23.1.1 31105 1n25A 368 3.51e+01 c.37.1.20 85264 1ojxA 263 3.51e+01 c.1.10.1 93164 1w8sA 263 3.53e+01 1vr0A 247 3.55e+01 1tllA 688 3.76e+01 b.43.4.1,c.23.5.2,c.25.1.4 107128,107129,107130 1ze3C 205 3.85e+01 2madH 373 3.97e+01 2bbkH b.69.2.1 27639 3sil 379 3.97e+01 3sil b.68.1.1 27542 1bf8 205 4.04e+01 1qpxA b.1.11.1,b.7.2.1 22332,23214 1m3jA 471 4.06e+01 f.9.1.1 91182 1u0sY 118 4.07e+01 c.23.1.1 107566 1ffkD 176 4.07e+01 1ffkD d.77.1.1 39750 1uumA 372 4.08e+01 c.1.4.1 100010 1ku2A 241 4.13e+01 a.4.13.1,a.177.1.1 83096,83097 1z41A 338 4.18e+01 1oktA 211 4.20e+01 a.45.1.1,c.47.1.5 93272,93273 1k66A 149 4.39e+01 c.23.1.1 90941 1ag8A 499 4.40e+01 1bpwA c.82.1.1 35341 1n83A 270 4.43e+01 a.123.1.1 80276 1r3nA 462 4.51e+01 c.56.5.4,d.58.19.1 96945,96946 1s8nA 205 4.52e+01 c.23.1.1 105374 1bvh 157 4.56e+01 1dg9A c.44.1.1 32640 1y42X 392 4.76e+01 2bi0A 337 5.05e+01 2c1gA 431 5.06e+01 1uxy 340 5.07e+01 2mbr d.145.1.2,d.146.1.1 41748,41761 2mbr 340 5.19e+01 2mbr d.145.1.2,d.146.1.1 41749,41762 1whrA 124 5.50e+01 1a45 173 5.51e+01 1amm b.11.1.1,b.11.1.1 23602,23603 1qr0A 228 5.67e+01 1qr0A d.150.1.1,d.150.1.1 59038,59039 1ufbA 127 5.75e+01 a.24.16.3 99331 1dg9A 157 5.81e+01 1dg9A c.44.1.1 32637 1gnlA 544 5.85e+01 e.26.1.1 70287 1zk5A 176 5.88e+01 1b1cA 181 5.92e+01 1amoA c.23.5.2 31212 2aawA 222 5.99e+01 1o04A 500 6.04e+01 c.82.1.1 86508 1x9uA 116 6.04e+01 1ntr 124 6.09e+01 1dbwA c.23.1.1 31092 1q7zA 566 6.12e+01 c.1.21.2,c.1.26.1 96090,96091 2fdiA 211 6.15e+01 1phr 157 6.19e+01 1dg9A c.44.1.1 32635 1g65K 211 6.28e+01 d.153.1.4 41907 1ituA 369 6.46e+01 c.1.9.7 71423 1pfo 500 6.46e+01 1pfo f.9.1.1 43826 2f71A 298 7.00e+01 1zoxA 113 7.01e+01 1spvA 184 7.02e+01 c.50.1.2 98957 1kbvA 327 7.15e+01 b.6.1.3,b.6.1.3 68395,68396 1yviA 149 7.19e+01 1jf2A 195 7.19e+01 1ej3A a.39.1.5 62930 1httA 423 7.26e+01 1adjA c.51.1.1,d.104.1.1 33178,40727 1d3hA 367 7.29e+01 1d3gA c.1.4.1 28601 1r3sA 367 7.35e+01 c.1.22.1 96963 1hf2A 210 7.56e+01 1hf2A b.80.3.1,c.102.1.1 60992,60993 1oy1A 228 7.71e+01 c.23.16.2 87548 1w96A 554 7.74e+01 1pty 321 7.87e+01 1pty c.45.1.2 32656 1uroA 367 7.89e+01 1uroA c.1.22.1 29675 6pfkA 319 7.95e+01 3pfk c.89.1.1 35583 2a5kA 307 7.99e+01 1u5tC 202 8.01e+01 a.4.5.54,a.4.5.54 107688,107689 1g7fA 298 8.10e+01 1pty c.45.1.2 60330 1irp 153 8.11e+01 1irp b.42.1.2 25559 1mdbA 539 8.18e+01 e.23.1.1 79008 1vhoA 346 8.22e+01 b.49.3.1,c.56.5.4 100694,100695 1rypL 212 8.29e+01 d.153.1.4 41880 1pwhA 327 8.30e+01 c.79.1.1 95224 1svmA 377 8.41e+01 1qo2A 241 8.41e+01 1qo2A c.1.2.1 28533 2b49A 287 8.45e+01 2jdxA 385 8.47e+01 1jdw d.126.1.2 41139 2awdA 323 8.54e+01 1yadA 221 8.59e+01 2fug7 129 8.75e+01 1h4aX 173 8.81e+01 b.11.1.1,b.11.1.1 83479,83480 1yo8A 634 8.99e+01